Pinned Repositories
ACC_Project
Intratumor microbes in adrenocortical carcinoma
Age-associated_cancer_genome
autoencoder_for_cancer_subtype
awesome-bioinformatics-benchmarks
A curated list of bioinformatics bench-marking papers and resources.
Awesome_BigData_AI_DrugDiscovery
A collection of resources useful for leveraging big data and AI for drug discovery. It mainly serves as an orientation for new lab folks. It may be biased towards my lab interest.
bbplot
R package that helps create and export ggplot2 charts in the style used by the BBC News data team
bds-files
Supplementary files for my book, "Bioinformatics Data Skills"
BE-GIM_Comparison
Single-Cell RNA Sequencing Unifies Developmental Programs of Esophageal and Gastric Intestinal Metaplasia
Benchmarking-of-Phenotype-driven-Gene-Prioritization-Methods
hif2gene
WANGDI0212's Repositories
WANGDI0212/BE-GIM_Comparison
Single-Cell RNA Sequencing Unifies Developmental Programs of Esophageal and Gastric Intestinal Metaplasia
WANGDI0212/ACC_Project
Intratumor microbes in adrenocortical carcinoma
WANGDI0212/Benchmarking-of-Phenotype-driven-Gene-Prioritization-Methods
WANGDI0212/cancer-proteomics-compendium-n2002
We assembled a compendium dataset of mass-spectrometry-based proteomics data of 2002 primary tumors from 14 cancer types and 17 studies
WANGDI0212/Code_for_circSC
Analysis pipeline for our circSC manuscript
WANGDI0212/COPD_multiomics
This repository contains computer codes for main analyses of the manuscript titled 'Multi-omic Landscape of Airway Microbe-Host Interaction in Chronic Obstructive Pulmonary Disease'.
WANGDI0212/CRDscore
WANGDI0212/ecotyper
EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
WANGDI0212/gastric-cancer
WANGDI0212/host_gene_microbiome_interactions
Analysis framework for integrating gut microbiome and host gene expression data
WANGDI0212/iPMIC
WANGDI0212/IRLS
Machine learning-based integrative analysis develops an immune-derived lncRNA signature for improving clinical outcomes in colorectal cancer
WANGDI0212/ISLR-Exercises
Exercises of 'An Introduction to Statistical Learning with Applications in R (V1)'
WANGDI0212/MFP
Conserved pan-cancer microenvironment subtypes predict response to immunotherapy
WANGDI0212/MIAS
Codes for the manuscript: Prediction of biomarkers and therapeutic combinations for anti-PD-1 immunotherapy using the global gene network association
WANGDI0212/MIMESIS
A package to identify type/subtype of tumor samples and estimate tumor content using minimal DNA-methylation signatures
WANGDI0212/ml4calibrated450k
This is a companion repository for the article "Comparative analysis of machine learning classifiers and calibration algorithms for estimating class probabilities for personalized cancer diagnostics on DNA methylation microarray data"
WANGDI0212/neoantigen-specific-T-cells-NSCLC
WANGDI0212/organ-site-mapping
Mapping ICD billing codes and terms to a standard ontology
WANGDI0212/pan-cancer-host-microbiome-associations
Manuscript for pan-cancer-host-microbiome-associations
WANGDI0212/Pancan-ICI
WANGDI0212/pancancer_prot_act
Pan‐Cancer landscape of protein activities identifies drivers of signalling dysregulation and patient survival
WANGDI0212/PASS-ON-codes
WANGDI0212/PEACE_melanoma_14_paper
Late-Stage Metastatic Melanoma Emerges through a Diversity of Evolutionary Pathways
WANGDI0212/Precily
WANGDI0212/pytorch-tutorial
PyTorch Tutorial for Deep Learning Researchers
WANGDI0212/sygnal
SYstems Genetic Network AnaLysis (SYGNAL) pipeline
WANGDI0212/tcga-microbiome-prediction
Predictive models and analysis of cancer prognosis and drug response using primary tumor microbial abundances derived from WGS and RNA-seq sequencing data for 32 TCGA cancers (Poore et al. Nature 2020), including equivalent models using TCGA RNA-seq gene expression and combined microbial abundance and gene expression for comparison.
WANGDI0212/TMEscore
Calculating Tumor microenvironment score
WANGDI0212/Tumor-cellular-states-and-ecosystems-in-CRC
Deep immunophenotyping reveals clinically distinct cellular states and ecosystems in large-scale colorectal cancer